Search Results - "Rohita Sinha"

Association between baseline abundance of Peptoniphilus, a Gram-positive anaerobic coccus, and wound healing outcomes of DFUs by Min, Kyung R, Galvis, Adriana, Baquerizo Nole, Katherine L, Sinha, Rohita, Clarke, Jennifer, Kirsner, Robert S, Ajdic, Dragana

“…Diabetic foot ulcers (DFUs) lead to nearly 100,000 lower limb amputations annually in the United States. DFUs are colonized by complex microbial communities,…”
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Docking by structural similarity at protein-protein interfaces by Sinha, Rohita, Kundrotas, Petras J., Vakser, Ilya A.

“…Rapid accumulation of experimental data on protein‐protein complexes drives the paradigm shift in protein docking from “traditional,” template free approaches…”
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Commensal Escherichia coli Strains Can Promote Intestinal Inflammation via Differential Interleukin-6 Production by Kittana, Hatem, Gomes-Neto, João Carlos, Heck, Kari, Geis, Abby L, Segura Muñoz, Rafael R, Cody, Liz A, Schmaltz, Robert J, Bindels, Laure B, Sinha, Rohita, Hostetter, Jesse M, Benson, Andrew K, Ramer-Tait, Amanda E

“…is a facultative anaerobic symbiont found widely among mammalian gastrointestinal tracts. Several human studies have reported increased commensal abundance in…”
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Short term dynamics of the sputum microbiome among COPD patients by Sinha, Rohita, Weissenburger-Moser, Lisa A, Clarke, Jennifer L, Smith, Lynette M, Heires, Art J, Romberger, Debra J, LeVan, Tricia D

“…Chronic obstructive pulmonary disease (COPD) is an inflammatory disorder characterized by incompletely reversible airflow obstruction. The complexity of the…”
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Protein docking by the interface structure similarity: how much structure is needed? by Sinha, Rohita, Kundrotas, Petras J, Vakser, Ilya A

“…The increasing availability of co-crystallized protein-protein complexes provides an opportunity to use template-based modeling for protein-protein docking…”
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The MSDIN family in amanitin-producing mushrooms and evolution of the prolyl oligopeptidase genes by Luo, Hong, Cai, Qing, Lüli, Yunjiao, Li, Xuan, Sinha, Rohita, Hallen-Adams, Heather E, Yang, Zhu L

“…The biosynthetic pathway for amanitins and related cyclic peptides in deadly ( ) mushrooms represents the first known ribosomal cyclic peptide pathway in the …”
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Donor‐derived cell‐free DNA levels predict graft injury in liver transplant recipients by Levitsky, Josh, Kandpal, Manoj, Guo, Kexin, Kleiboeker, Steve, Sinha, Rohita, Abecassis, Michael

“…Donor‐derived cell‐free DNA (dd‐cfDNA) has been evaluated as a rejection marker in organ transplantation. This study sought to assess the utility of dd‐cfDNA…”
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Ganciclovir and maribavir susceptibility phenotypes of cytomegalovirus UL97 ATP binding region mutations detected by expanded genotypic testing by Chou, Sunwen, Watters, Matthew, Sinha, Rohita, Kleiboeker, Steven

“…Because ganciclovir resistance mutations in the cytomegalovirus UL97 gene most commonly occur at codons 460, 520 and 590–607, diagnostic genotyping for drug…”
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Combined Metagenomic Viral Detection and Donor-Derived Cell-Free DNA Quantification in Plasma From Kidney Transplant Recipients by Sinha, Rohita, Zhu, Zixuan, Park, Sookhyeon, Rebello, Christabel, Kinsella, Bradley, Friedewald, John, Kleiboeker, Steven

“…Kidney transplant recipients require potent immunosuppression and are predisposed to opportunistic infections, many of which have a viral etiology. Currently,…”
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424.2: Temporal and Diversity Characterization of Metagenomic Viral Detection in Kidney Transplant Recipients by Sinha, Rohita, Miller, Mikaela, Rebello, Christabel, Kinsella, Bradley, Friedewald, John, Kleiboeker, Steve

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Serial Testing of Blood Gene Expression and Donor-Derived Cell-Free DNA for Predicting Future Kidney Allograft Failure: FR-PO786 by Guo, Kexin, Kushner, Alexis J., Rebello, Christabel, Kinsella, Bradley M., Sinha, Rohita, Zhao, Lihui, Friedewald, John J., Park, Sookhyeon

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Metagenomic Detection of Clinical and Potentially Undiagnosed Infections in Kidney Transplant Recipients: FR-PO801 by Kleiboeker, Steven, Miller, Mikaela A., Sinha, Rohita, Park, Sookhyeon, Rebello, Christabel, Kinsella, Bradley M., Friedewald, John J.

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Combining Blood Gene Expression and Cellfree DNA to Diagnose Subclinical Rejection in Kidney Transplant Recipients by Park, Sookhyeon, Guo, Kexin, Heilman, Raymond L, Poggio, Emilio D, Taber, David J, Marsh, Christopher L, Kurian, Sunil M, Kleiboeker, Steve, Weems, Juston, Holman, John, Zhao, Lihui, Sinha, Rohita, Brietigam, Susan, Rebello, Christabel, Abecassis, Michael M, Friedewald, John J

“…Subclinical acute rejection is associated with poor outcomes in kidney transplant recipients. As an alternative to surveillance biopsies, noninvasive screening…”
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Microbial successions are associated with changes in chemical profiles of a model refrigerated fresh pork sausage during an 80-day shelf life study by Benson, Andrew K, David, Jairus R D, Gilbreth, Stefanie Evans, Smith, Gordon, Nietfeldt, Joseph, Legge, Ryan, Kim, Jaehyoung, Sinha, Rohita, Duncan, Christopher E, Ma, Junjie, Singh, Indarpal

“…Fresh pork sausage is produced without a microbial kill step and therefore chilled or frozen to control microbial growth. In this report, the microbiota in a…”
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1210. K-mer Profiling Powered by Reference-assisted Assembly of NGS Data: A Highly Sensitive Protocol to Infer the Plasma Microbiome Using Cell-free DNA Sequence Data by Sinha, Rohita, Kleiboeker, Steve, Altrich, Michelle, Bixler, Ellis

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Alignment behaviors of short peptides provide a roadmap for functional profiling of metagenomic data by Sinha, Rohita, Clarke, Jennifer, Benson, Andrew K

“…Functional assignments for short-read metagenomic data pose a significant computational challenge due to perceived unpredictability of alignment behavior and…”
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1786. An Automated Method to Assess Oligonucleotide Primer and Probe Complementarity to Genomic Targets in Infectious Disease qPCR Assays by Sinha, Rohita, Wissel, Mark, Bartlett, Katelyn, Grantham, James, Kleiboeker, Steve

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A real-time PCR assay for accurate quantification of the individual members of the Altered Schaedler Flora microbiota in gnotobiotic mice by Gomes-Neto, João Carlos, Mantz, Sara, Held, Kyler, Sinha, Rohita, Segura Munoz, Rafael R., Schmaltz, Robert, Benson, Andrew K., Walter, Jens, Ramer-Tait, Amanda E.

“…Changes in the gastrointestinal microbial community are frequently associated with chronic diseases such as Inflammatory Bowel Diseases. However, understanding…”
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Captive Common Marmosets (Callithrix jacchus) Are Colonized throughout Their Lives by a Community of Bifidobacterium Species with Species-Specific Genomic Content That Can Support Adaptation to Distinct Metabolic Niches by Zhu, Lifeng, Yang, Qinnan, Suhr Van Haute, Mallory J, Kok, Car Reen, Gomes-Neto, Joao Carlos, Pavlovikj, Natasha, Pillai, Resmi, Sinha, Rohita, Hassenstab, Haley, Mustoe, Aaryn, Moriyama, Etsuko N, Hutkins, Robert, French, Jeffrey, Benson, Andrew K

“…The common marmoset (Callithrix jacchus) is an omnivorous New World primate whose diet in the wild includes large amounts of fruit, seeds, flowers, and a…”
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Docking by Structural Similarity at Protein-Protein Interfaces by Kundrotas, Petras, Sinha, Rohita, Vakser, Ilya A.

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